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	<title>Comments on: Being a bioinformatician is hard</title>
	<atom:link href="http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/feed/" rel="self" type="application/rss+xml" />
	<link>http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/</link>
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	<pubDate>Fri, 12 Mar 2010 03:38:37 +0000</pubDate>
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		<title>By: Mike</title>
		<link>http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-30337</link>
		<dc:creator>Mike</dc:creator>
		<pubDate>Sun, 12 Oct 2008 16:02:07 +0000</pubDate>
		<guid isPermaLink="false">http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-30337</guid>
		<description>@Susan
I can't really answer what courses are the best for you. Having an interest in both computers and biology is the most important thing. If you enjoy both of those, I'd say you probably won't go far wrong.

@Nitin
I agree, I'm sure the best research comes from people working together in both the wet and dry lab. I'm going to hug the next person I see wearing a lab coat.</description>
		<content:encoded><![CDATA[<p>@Susan<br />
I can&#8217;t really answer what courses are the best for you. Having an interest in both computers and biology is the most important thing. If you enjoy both of those, I&#8217;d say you probably won&#8217;t go far wrong.</p>
<p>@Nitin<br />
I agree, I&#8217;m sure the best research comes from people working together in both the wet and dry lab. I&#8217;m going to hug the next person I see wearing a lab coat.</p>
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		<title>By: Nitin Pathania</title>
		<link>http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-30263</link>
		<dc:creator>Nitin Pathania</dc:creator>
		<pubDate>Sat, 11 Oct 2008 17:21:45 +0000</pubDate>
		<guid isPermaLink="false">http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-30263</guid>
		<description>The scope of work involved in Bioinformatics is endless,infinite.....
However debating on issue i.e "Who shall be credited for the reseach work involved whether Wet or Dry Lab gigs" is a Vicious circle of self suicidal attempts to the bright, healthy and beautifull WORLD.
I believe we are all a part of Team...If respected oldage Wet Lab scientists do play such games.....then they themselves become the reason to streatch the fruitfull Results in thier favour only...

We are all PROUD to be Bioinformaticians ( Next to God Father )...</description>
		<content:encoded><![CDATA[<p>The scope of work involved in Bioinformatics is endless,infinite&#8230;..<br />
However debating on issue i.e &#8220;Who shall be credited for the reseach work involved whether Wet or Dry Lab gigs&#8221; is a Vicious circle of self suicidal attempts to the bright, healthy and beautifull WORLD.<br />
I believe we are all a part of Team&#8230;If respected oldage Wet Lab scientists do play such games&#8230;..then they themselves become the reason to streatch the fruitfull Results in thier favour only&#8230;</p>
<p>We are all PROUD to be Bioinformaticians ( Next to God Father )&#8230;</p>
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		<title>By: Susan</title>
		<link>http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-17299</link>
		<dc:creator>Susan</dc:creator>
		<pubDate>Tue, 20 May 2008 16:58:37 +0000</pubDate>
		<guid isPermaLink="false">http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-17299</guid>
		<description>i want to be  a bioinformatician so would you say doing the folowing courses are useful:
cell and molecular pharmacology
bioinformatics
gene cloning and expression
protein structure and design</description>
		<content:encoded><![CDATA[<p>i want to be  a bioinformatician so would you say doing the folowing courses are useful:<br />
cell and molecular pharmacology<br />
bioinformatics<br />
gene cloning and expression<br />
protein structure and design</p>
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		<title>By: Pawel</title>
		<link>http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-2087</link>
		<dc:creator>Pawel</dc:creator>
		<pubDate>Tue, 14 Aug 2007 05:22:30 +0000</pubDate>
		<guid isPermaLink="false">http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-2087</guid>
		<description>Is the similarity between "bioinformatician" and "technician" only a coincidence? 

While I admit that we are often misunderstood and many wetlab people do not appreciate our work, I believe the blame is on our side too. I see many times people who forget that there's a "bio" prefix in here, and neglect the biological side of their work. How can we deserve a respect if there are cases where bioinformaticians don't distinguish between two beta-barrels with different number of strands or treat DNA sequence as protein sequence with limited alphabet (for more inspiring examples see archives of journals focused on biocomputing/bioinformatics)? 

It's not only politics, high self-importance of wetlab people, but also work called "bioinformatics" that's too often of questionable quality. I believe all three contribute significantly to that problem.</description>
		<content:encoded><![CDATA[<p>Is the similarity between &#8220;bioinformatician&#8221; and &#8220;technician&#8221; only a coincidence? </p>
<p>While I admit that we are often misunderstood and many wetlab people do not appreciate our work, I believe the blame is on our side too. I see many times people who forget that there&#8217;s a &#8220;bio&#8221; prefix in here, and neglect the biological side of their work. How can we deserve a respect if there are cases where bioinformaticians don&#8217;t distinguish between two beta-barrels with different number of strands or treat DNA sequence as protein sequence with limited alphabet (for more inspiring examples see archives of journals focused on biocomputing/bioinformatics)? </p>
<p>It&#8217;s not only politics, high self-importance of wetlab people, but also work called &#8220;bioinformatics&#8221; that&#8217;s too often of questionable quality. I believe all three contribute significantly to that problem.</p>
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		<title>By: Mike</title>
		<link>http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-2017</link>
		<dc:creator>Mike</dc:creator>
		<pubDate>Fri, 10 Aug 2007 16:16:03 +0000</pubDate>
		<guid isPermaLink="false">http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-2017</guid>
		<description>After writing this post, I and a few other people in the department had a bit of group discussion: we went to the pub and just let everything out. One thing that came up was how wet/dry collaborations are a one way street. If you spend three days doing work for a lab biologist, you would be lucky to get into the acknowledgements. On the other hand, if you managed to persuade someone in the lab to do three days of work for you, you can imagine the vitriolic rant if you failed to put them as an author in the paper. One person I spoke to said that he's started refusing to do work for lab biologists now because, in the majority they either have no understanding of the effort it takes, or just treat bioinformatics researchers as a service.

Pedro and Neil both said that there are lab biologists who do appreciate bioinformatics, but my personal opinion is that they are in the minority. Though as both say, when dry and wet work together the results are more than the sum of their parts.

Another interesting point of discussion was about the time it takes to do bioinformatics work. If you do some work for a biologist, if it only takes you a few hours does that mean it's easy? I think the answer is no, because you've put the weeks, and months in learning how to do the analysis correctly. Getting good enough to do the analysis, so that it looks like it's easy should still mean that you get credit for it, after all have much time have you saved the biologist. Or could they even be able to do it themselves? I think this is something similar to what Kieren was saying.

This is turning into a bit of rant, however I think the political issues that are preventing more wet and dry lab people working together is a bit a waste. Which is in turn usually a waste of public money.

I'd also like to say that person in the picture is not me. A few of my friends have asked this, Kieren in particular asked if I had photoshopped a beard onto myself? I'm also not married either, i.e. there's a wedding ring on his finger. Maybe that's why he's sad? Having said that, I'm not opposed to marriage, it's just that I've had a few bad relationships in the past. Time to stop writing.</description>
		<content:encoded><![CDATA[<p>After writing this post, I and a few other people in the department had a bit of group discussion: we went to the pub and just let everything out. One thing that came up was how wet/dry collaborations are a one way street. If you spend three days doing work for a lab biologist, you would be lucky to get into the acknowledgements. On the other hand, if you managed to persuade someone in the lab to do three days of work for you, you can imagine the vitriolic rant if you failed to put them as an author in the paper. One person I spoke to said that he&#8217;s started refusing to do work for lab biologists now because, in the majority they either have no understanding of the effort it takes, or just treat bioinformatics researchers as a service.</p>
<p>Pedro and Neil both said that there are lab biologists who do appreciate bioinformatics, but my personal opinion is that they are in the minority. Though as both say, when dry and wet work together the results are more than the sum of their parts.</p>
<p>Another interesting point of discussion was about the time it takes to do bioinformatics work. If you do some work for a biologist, if it only takes you a few hours does that mean it&#8217;s easy? I think the answer is no, because you&#8217;ve put the weeks, and months in learning how to do the analysis correctly. Getting good enough to do the analysis, so that it looks like it&#8217;s easy should still mean that you get credit for it, after all have much time have you saved the biologist. Or could they even be able to do it themselves? I think this is something similar to what Kieren was saying.</p>
<p>This is turning into a bit of rant, however I think the political issues that are preventing more wet and dry lab people working together is a bit a waste. Which is in turn usually a waste of public money.</p>
<p>I&#8217;d also like to say that person in the picture is not me. A few of my friends have asked this, Kieren in particular asked if I had photoshopped a beard onto myself? I&#8217;m also not married either, i.e. there&#8217;s a wedding ring on his finger. Maybe that&#8217;s why he&#8217;s sad? Having said that, I&#8217;m not opposed to marriage, it&#8217;s just that I&#8217;ve had a few bad relationships in the past. Time to stop writing.</p>
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		<title>By: Pawel</title>
		<link>http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-1979</link>
		<dc:creator>Pawel</dc:creator>
		<pubDate>Wed, 08 Aug 2007 17:07:25 +0000</pubDate>
		<guid isPermaLink="false">http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-1979</guid>
		<description>Bioinformatics is not all about the code and figures - it's often about deep understanding from many different points of view the system you are working on. And it usually demands both: coding skills and extensive biological knowledge. 

I definitely agree that people doing bioinformatics are at the forefront of the biological sciences - being able to look at the problem at all possible levels of molecular organisation is a valuable skill.</description>
		<content:encoded><![CDATA[<p>Bioinformatics is not all about the code and figures - it&#8217;s often about deep understanding from many different points of view the system you are working on. And it usually demands both: coding skills and extensive biological knowledge. </p>
<p>I definitely agree that people doing bioinformatics are at the forefront of the biological sciences - being able to look at the problem at all possible levels of molecular organisation is a valuable skill.</p>
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		<title>By: The life of a bioinformatician&#8230; &#171; microbial gobbledygook</title>
		<link>http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-1958</link>
		<dc:creator>The life of a bioinformatician&#8230; &#171; microbial gobbledygook</dc:creator>
		<pubDate>Tue, 07 Aug 2007 17:41:09 +0000</pubDate>
		<guid isPermaLink="false">http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-1958</guid>
		<description>[...] life of a&#160;bioinformatician&#8230;  Just finished reading a very good post over at BioInformatics Zen which underscores several issues many informatics-based researchers face. One of the predominant [...]</description>
		<content:encoded><![CDATA[<p>[...] life of a&nbsp;bioinformatician&#8230;  Just finished reading a very good post over at BioInformatics Zen which underscores several issues many informatics-based researchers face. One of the predominant [...]</p>
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		<title>By: Animesh Sharma</title>
		<link>http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-1956</link>
		<dc:creator>Animesh Sharma</dc:creator>
		<pubDate>Tue, 07 Aug 2007 16:50:11 +0000</pubDate>
		<guid isPermaLink="false">http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-1956</guid>
		<description>"We produce p-values, programs, and figures"...
There is one angle to this, the bioinformatics boom also came through the Structure based drug design [ http://staffnet.kingston.ac.uk/~ku33185/BioModule/struclife.pdf ].</description>
		<content:encoded><![CDATA[<p>&#8220;We produce p-values, programs, and figures&#8221;&#8230;<br />
There is one angle to this, the bioinformatics boom also came through the Structure based drug design [ <a href="http://staffnet.kingston.ac.uk/~ku33185/BioModule/struclife.pdf" rel="nofollow">http://staffnet.kingston.ac.uk/~ku33185/BioModule/struclife.pdf</a> ].</p>
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		<title>By: Kieren Lythgow</title>
		<link>http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-1951</link>
		<dc:creator>Kieren Lythgow</dc:creator>
		<pubDate>Tue, 07 Aug 2007 13:36:52 +0000</pubDate>
		<guid isPermaLink="false">http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-1951</guid>
		<description>I was reading your post and a work colleague (a lab biologist) said over my shoulder 'Bioinformatics isn't hard.' To which I responded by opening up some recent java code I'd written. His response was 'Oh well thats just gibberish.'

He gives me a region of interest and I generate a list of interesting candidates...easy! Unfortunately, that is exactly how it appears to most of them. Their appreciation for your coding skills, database knowledge, SVMs, web services, workflows, linux commands and your ability to automate analyses that save them months of time just don't exist.

However, there are the select few that do and they are the ones that have made an effort to understand your area of expertise. Where would we be without bioinformatics?

Claiming it is 'not proper science' is drastically inaccurate as science by its very definition means 'to know', it is about knowledge acquisition through observation and experimentation. This is why bioinformatics is a rigorous, intensive, multidisciplinary 'science'.</description>
		<content:encoded><![CDATA[<p>I was reading your post and a work colleague (a lab biologist) said over my shoulder &#8216;Bioinformatics isn&#8217;t hard.&#8217; To which I responded by opening up some recent java code I&#8217;d written. His response was &#8216;Oh well thats just gibberish.&#8217;</p>
<p>He gives me a region of interest and I generate a list of interesting candidates&#8230;easy! Unfortunately, that is exactly how it appears to most of them. Their appreciation for your coding skills, database knowledge, SVMs, web services, workflows, linux commands and your ability to automate analyses that save them months of time just don&#8217;t exist.</p>
<p>However, there are the select few that do and they are the ones that have made an effort to understand your area of expertise. Where would we be without bioinformatics?</p>
<p>Claiming it is &#8216;not proper science&#8217; is drastically inaccurate as science by its very definition means &#8216;to know&#8217;, it is about knowledge acquisition through observation and experimentation. This is why bioinformatics is a rigorous, intensive, multidisciplinary &#8217;science&#8217;.</p>
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		<title>By: Pedro Beltrao</title>
		<link>http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-1948</link>
		<dc:creator>Pedro Beltrao</dc:creator>
		<pubDate>Tue, 07 Aug 2007 10:44:32 +0000</pubDate>
		<guid isPermaLink="false">http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-1948</guid>
		<description>It also depends on the labs. I had the luck of doing my PhD in a lab were a lot of people did a bit of both (bench and programing). It is good for several reasons but one of them is exactly that several people in the lab understood those small little things that make the job not has easy as it looks.</description>
		<content:encoded><![CDATA[<p>It also depends on the labs. I had the luck of doing my PhD in a lab were a lot of people did a bit of both (bench and programing). It is good for several reasons but one of them is exactly that several people in the lab understood those small little things that make the job not has easy as it looks.</p>
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		<title>By: Posts of note &#171; What You&#8217;re Doing Is Rather Desperate</title>
		<link>http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-1945</link>
		<dc:creator>Posts of note &#171; What You&#8217;re Doing Is Rather Desperate</dc:creator>
		<pubDate>Tue, 07 Aug 2007 06:30:31 +0000</pubDate>
		<guid isPermaLink="false">http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-1945</guid>
		<description>[...] ponders the life of the bioinformatician. Difficult but ultimately rewarding, he [...]</description>
		<content:encoded><![CDATA[<p>[...] ponders the life of the bioinformatician. Difficult but ultimately rewarding, he [...]</p>
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		<title>By: Neil</title>
		<link>http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-1936</link>
		<dc:creator>Neil</dc:creator>
		<pubDate>Mon, 06 Aug 2007 22:41:03 +0000</pubDate>
		<guid isPermaLink="false">http://www.bioinformaticszen.com/2007/08/being-a-bioinformatician-is-hard/#comment-1936</guid>
		<description>Yes, it's easy to feel undervalued as the bioinformatician.  There is a subset of biologists who believe that we have it easy; numbers go into the black box, numbers come out.  Yet they're happy to come running when they need to transpose rows into columns, or some equally mundane IT-support style task.

Equally though, there are plenty of biologists who realise the importance of bioinformatics and are happy to give us credit for our skill set.  So befriend them and ignore the others!  They'll soon get the message.

It's also important to stay focused on biological problems and promote what you do at every opportunity, so as the relevance can't be ignored.  You'll never convince some people of the benefits of R/gnuplot/scripting over Excel but when you casually mention in your group talk:  "so, I took all of GenBank, fed it through my pipeline and here are the candidates" (one slide), they'll see for themselves.  Eventually.</description>
		<content:encoded><![CDATA[<p>Yes, it&#8217;s easy to feel undervalued as the bioinformatician.  There is a subset of biologists who believe that we have it easy; numbers go into the black box, numbers come out.  Yet they&#8217;re happy to come running when they need to transpose rows into columns, or some equally mundane IT-support style task.</p>
<p>Equally though, there are plenty of biologists who realise the importance of bioinformatics and are happy to give us credit for our skill set.  So befriend them and ignore the others!  They&#8217;ll soon get the message.</p>
<p>It&#8217;s also important to stay focused on biological problems and promote what you do at every opportunity, so as the relevance can&#8217;t be ignored.  You&#8217;ll never convince some people of the benefits of R/gnuplot/scripting over Excel but when you casually mention in your group talk:  &#8220;so, I took all of GenBank, fed it through my pipeline and here are the candidates&#8221; (one slide), they&#8217;ll see for themselves.  Eventually.</p>
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